6HGT
Crystal structure of human KDM4A complexed with co-substrate analog NOG and histone H3 peptide with K9R mutation
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I04-1 |
Synchrotron site | Diamond |
Beamline | I04-1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2017-03-06 |
Detector | DECTRIS PILATUS 6M-F |
Wavelength(s) | 0.9282 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 58.440, 103.410, 144.520 |
Unit cell angles | 90.00, 99.63, 90.00 |
Refinement procedure
Resolution | 43.160 - 2.330 |
R-factor | 0.252 |
Rwork | 0.251 |
R-free | 0.28000 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2oq6 |
RMSD bond length | 0.010 |
RMSD bond angle | 1.050 |
Data reduction software | XDS |
Data scaling software | Aimless |
Phasing software | PHASER |
Refinement software | BUSTER (2.10.3) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 44.270 | 2.390 |
High resolution limit [Å] | 2.330 | 2.330 |
Rmerge | 0.180 | 1.153 |
Number of reflections | 72206 | 5294 |
<I/σ(I)> | 8.6 | 1.6 |
Completeness [%] | 99.7 | 100 |
Redundancy | 6.5 | 7 |
CC(1/2) | 0.984 | 0.560 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 7.5 | 291 | Crystallisation solution is 0.1M Bis-Tris-Propane pH7.5, 12-16% PEG-4000. Co-substrate analog NOG and H3R9 peptide were co-crystallised with the protein. |